If more than 50 genes/sequences are provided as input, then the associated running time can take some time. Therefore it is advisable to provide an email-address in case you are running the Interactive Phylogenetics Module with more than 50 genes. After processing you will be send an email with a link to the created phylogenetic tree.
The selection modi are exclusive: please choose either Gene selection or Species selection.
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ) $local_species = 'acertr' $disabled = '' $selected = ''include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0;
$disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":"";
$selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":"";
$num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0;
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ) $local_species = 'acertr' $disabled = '' $selected = ''
include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ) $local_species = 'ach' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ) $local_species = 'ach' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ) $local_species = 'aar' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ) $local_species = 'aar' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ) $local_species = 'amhyb' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ) $local_species = 'amhyb' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ) $local_species = 'atr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ) $local_species = 'atr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ) $local_species = 'aag' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ) $local_species = 'aag' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ) $local_species = 'aly' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ) $local_species = 'aly' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ) $local_species = 'ath' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ) $local_species = 'ath' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ) $local_species = 'arhy' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ) $local_species = 'arhy' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ) $local_species = 'ama' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ) $local_species = 'ama' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ) $local_species = 'bvu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ) $local_species = 'bvu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ) $local_species = 'bca' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ) $local_species = 'bca' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ) $local_species = 'bna' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ) $local_species = 'bna' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ) $local_species = 'bol' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ) $local_species = 'bol' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ) $local_species = 'bra' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ) $local_species = 'bra' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ) $local_species = 'camsi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ) $local_species = 'camsi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ) $local_species = 'cansat' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ) $local_species = 'cansat' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ) $local_species = 'cru' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ) $local_species = 'cru' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ) $local_species = 'can' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ) $local_species = 'can' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ) $local_species = 'chi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ) $local_species = 'chi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ) $local_species = 'cpa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ) $local_species = 'cpa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ) $local_species = 'cfa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ) $local_species = 'cfa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ) $local_species = 'cil' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ) $local_species = 'cil' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ) $local_species = 'cde' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ) $local_species = 'cde' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ) $local_species = 'cbr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ) $local_species = 'cbr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ) $local_species = 'cre' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ) $local_species = 'cre' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ) $local_species = 'cla' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ) $local_species = 'cla' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ) $local_species = 'ccl' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ) $local_species = 'ccl' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ) $local_species = 'ccan' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ) $local_species = 'ccan' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ) $local_species = 'col' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ) $local_species = 'col' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ) $local_species = 'cav' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ) $local_species = 'cav' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ) $local_species = 'cme' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ) $local_species = 'cme' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ) $local_species = 'csa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ) $local_species = 'csa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ) $local_species = 'dca' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ) $local_species = 'dca' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ) $local_species = 'din' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ) $local_species = 'din' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ) $local_species = 'dzi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ) $local_species = 'dzi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ) $local_species = 'eca' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ) $local_species = 'eca' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ) $local_species = 'egut' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ) $local_species = 'egut' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ) $local_species = 'egr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ) $local_species = 'egr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ) $local_species = 'esa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ) $local_species = 'esa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ) $local_species = 'fve' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ) $local_species = 'fve' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ) $local_species = 'fan' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ) $local_species = 'fan' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ) $local_species = 'gma' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ) $local_species = 'gma' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ) $local_species = 'ghi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ) $local_species = 'ghi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ) $local_species = 'gra' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ) $local_species = 'gra' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ) $local_species = 'han' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ) $local_species = 'han' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ) $local_species = 'hma' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ) $local_species = 'hma' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ) $local_species = 'lsa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ) $local_species = 'lsa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ) $local_species = 'lonja' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ) $local_species = 'lonja' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ) $local_species = 'lja' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ) $local_species = 'lja' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ) $local_species = 'lal' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ) $local_species = 'lal' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ) $local_species = 'mbi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ) $local_species = 'mbi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ) $local_species = 'mdo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ) $local_species = 'mdo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ) $local_species = 'mes' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ) $local_species = 'mes' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ) $local_species = 'mpo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ) $local_species = 'mpo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ) $local_species = 'mtr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ) $local_species = 'mtr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ) $local_species = 'mco' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ) $local_species = 'mco' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ) $local_species = 'nta' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ) $local_species = 'nta' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ) $local_species = 'oeu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ) $local_species = 'oeu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ) $local_species = 'osa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ) $local_species = 'osa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ) $local_species = 'pso' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ) $local_species = 'pso' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ) $local_species = 'pax' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ) $local_species = 'pax' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ) $local_species = 'pvu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ) $local_species = 'pvu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ) $local_species = 'ppa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ) $local_species = 'ppa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ) $local_species = 'ptr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ) $local_species = 'ptr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ) $local_species = 'pco' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ) $local_species = 'pco' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ) $local_species = 'pgr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ) $local_species = 'pgr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ) $local_species = 'qlo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ) $local_species = 'qlo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ) $local_species = 'rsi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ) $local_species = 'rsi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ) $local_species = 'rch' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ) $local_species = 'rch' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ) $local_species = 'sbr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ) $local_species = 'sbr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ) $local_species = 'sbo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ) $local_species = 'sbo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ) $local_species = 'shi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ) $local_species = 'shi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ) $local_species = 'sed' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ) $local_species = 'sed' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ) $local_species = 'smo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ) $local_species = 'smo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ) $local_species = 'sun' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ) $local_species = 'sun' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ) $local_species = 'sgi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ) $local_species = 'sgi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ) $local_species = 'sci' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ) $local_species = 'sci' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ) $local_species = 'sly' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ) $local_species = 'sly' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ) $local_species = 'spe' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ) $local_species = 'spe' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ) $local_species = 'stu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ) $local_species = 'stu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ) $local_species = 'sas' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ) $local_species = 'sas' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ) $local_species = 'tha' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ) $local_species = 'tha' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ) $local_species = 'tca' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ) $local_species = 'tca' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ) $local_species = 'tpr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ) $local_species = 'tpr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ) $local_species = 'twi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ) $local_species = 'twi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ) $local_species = 'tar' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ) $local_species = 'tar' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ) $local_species = 'ugi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ) $local_species = 'ugi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ) $local_species = 'vma' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ) $local_species = 'vma' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ) $local_species = 'vpl' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ) $local_species = 'vpl' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ) $local_species = 'vmu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ) $local_species = 'vmu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ) $local_species = 'vvi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ) $local_species = 'vvi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) $local_species = 'zma' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ), 'gf_id' => 'HOM05D000922', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000922' ), 'data_identifier' => 'HOM05D000922', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000922', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '652', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p25510' => 'bna', 'A04p01450' => 'bna', 'A04p33750' => 'bna', 'A05p05330' => 'bna', 'A05p05360' => 'bna', 'A06p29780' => 'bna', 'A07p25210' => 'bna', 'A09p52920' => 'bna', 'Aa31LG10G15020' => 'aar', 'Aa31LG1G26850' => 'aar', 'Aa31LG4G16800' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4800' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.598' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_369.290' => 'aag', 'Actinidia04732' => 'ach', 'Actinidia13560' => 'ach', 'Actinidia19330' => 'ach', 'Actinidia25030' => 'ach', 'Actinidia31400' => 'ach', 'Actinidia31791' => 'ach', 'Actinidia33076' => 'ach', 'Actinidia33077' => 'ach', 'Actinidia33473' => 'ach', 'Ah.02g110580' => 'amhyb', 'Ah.08g210390' => 'amhyb', 'Ah.10g032980' => 'amhyb', 'AL5G27540' => 'aly', 'AL5G43070' => 'aly', 'AL6G53410' => 'aly', 'AL8G40030' => 'aly', 'AL9U11780' => 'aly', 'Aqoxy3G02881' => 'aox', 'Aqoxy3G02884' => 'aox', 'Aqoxy5G03940' => 'aox', 'Aqoxy7G00655' => 'aox', 'arahy.Tifrunner.gnm1.ann1.3C9G4H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3YFD1D' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.68U9IV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.769USI' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9TFG5W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F0ZNJX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJA5XH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HW56LJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAVP2G' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZJQ66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PQAW0Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q2CJ89' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R1G0J4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RA2V7W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RSC0PJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UWQ2W3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VM9CX9' => 'arhy', 'AT3G48195' => 'ath', 'AT3G60770' => 'ath', 'AT4G00100' => 'ath', 'AT5G63000' => 'ath', 'ATR0315G073' => 'atr', 'ATR0757G221' => 'atr', 'ATR1091G081' => 'atr', 'ATR1091G108' => 'atr', 'Atru.chr1.650' => 'acertr', 'Atru.chr2.2846' => 'acertr', 'Atru.chr2.2901' => 'acertr', 'Atru.chr2.2903' => 'acertr', 'Atru.chr5.295' => 'acertr', 'Atru.chr8.758' => 'acertr', 'Atru.chr9.2494' => 'acertr', 'Atru.chr9.2496' => 'acertr', 'AUR62006239' => 'cqu', 'AUR62008194' => 'cqu', 'AUR62010095' => 'cqu', 'AUR62013091' => 'cqu', 'AUR62020775' => 'cqu', 'AUR62027929' => 'cqu', 'AUR62028474' => 'cqu', 'AUR62030946' => 'cqu', 'BcaB01g03269' => 'bca', 'BcaB02g07400' => 'bca', 'BcaB02g08970' => 'bca', 'BcaB02g09714' => 'bca', 'BcaB05g22925' => 'bca', 'BcaC01g02547' => 'bca', 'BcaC02g10177' => 'bca', 'BcaC02g12222' => 'bca', 'BcaC07g40595' => 'bca', 'BcaC07g42636' => 'bca', 'BcaC08g45083' => 'bca', 'BcaC09g49852' => 'bca', 'BolC1t03155H' => 'bol', 'BolC3t18619H' => 'bol', 'BolC4t22250H' => 'bol', 'BolC4t24746H' => 'bol', 'BolC4t28654H' => 'bol', 'BolC6t37866H' => 'bol', 'BolC8t51160H' => 'bol', 'BraA01t02462Z' => 'bra', 'BraA04t15863Z' => 'bra', 'BraA04t18837Z' => 'bra', 'BraA05t19502Z' => 'bra', 'BraA05t19506Z' => 'bra', 'BraA05t20357Z' => 'bra', 'BraA06t25925Z' => 'bra', 'BraA07t30163Z' => 'bra', 'C01p31950' => 'bna', 'C03p37040' => 'bna', 'C03p63610' => 'bna', 'C04p06290' => 'bna', 'C04p31930' => 'bna', 'C04p71480' => 'bna', 'C06p26920' => 'bna', 'C08p35690' => 'bna', 'CAN.G1166.3' => 'can', 'CAN.G1166.6' => 'can', 'CAN.G308.34' => 'can', 'CAN.G72.6' => 'can', 'CANSAT80G0619' => 'cansat', 'CANSAT80G0818' => 'cansat', 'CANSAT80G0836' => 'cansat', 'CANSAT80G2096' => 'cansat', 'CANSAT80G2526' => 'cansat', 'CARHR156940' => 'chi', 'CARHR171160' => 'chi', 'CARHR248140' => 'chi', 'CARHR276810' => 'chi', 'Carub.0005s1432' => 'cru', 'Carub.0005s2752' => 'cru', 'Carub.0006s3713' => 'cru', 'Carub.0007s3002' => 'cru', 'Carub.0008s2371' => 'cru', 'Ca_06693_v3' => 'car', 'Ca_12279_v3' => 'car', 'Ca_16166_v3' => 'car', 'Ca_19961_v3' => 'car', 'Ca_21935_v3' => 'car', 'Ca_27424_v3' => 'car', 'CBR_g22973' => 'cbr', 'CBR_g38960' => 'cbr', 'Cc00_g34540' => 'ccan', 'Cc01_g03670' => 'ccan', 'Cc02_g03990' => 'ccan', 'Cc02_g34730' => 'ccan', 'Cc03_g15650' => 'ccan', 'Cc04_g12110' => 'ccan', 'Cc04_g12150' => 'ccan', 'CDE02G1523' => 'cde', 'CDE04G0098' => 'cde', 'CDE06G1806' => 'cde', 'CDE07G0520' => 'cde', 'CDE07G1875' => 'cde', 'CDE11G1129' => 'cde', 'Cfa000646' => 'cfa', 'Cfa001743' => 'cfa', 'Cfa008223' => 'cfa', 'Cfa019117' => 'cfa', 'Cfa019149' => 'cfa', 'Cfa022420' => 'cfa', 'Ciclev10006145m.g' => 'ccl', 'Ciclev10018588m.g' => 'ccl', 'Ciclev10022297m.g' => 'ccl', 'Ciclev10022677m.g' => 'ccl', 'CiPaw.01G262900' => 'cil', 'CiPaw.02G168800' => 'cil', 'CiPaw.03G096400' => 'cil', 'CiPaw.04G062100' => 'cil', 'CiPaw.11G024500' => 'cil', 'CiPaw.11G024700' => 'cil', 'ClCG01G003650' => 'cla', 'ClCG01G013230' => 'cla', 'ClCG06G000430' => 'cla', 'ClCG06G017060' => 'cla', 'ClCG10G003110' => 'cla', 'COL.COLO4_12532' => 'col', 'COL.COLO4_14167' => 'col', 'COL.COLO4_30068' => 'col', 'COL.COLO4_30070' => 'col', 'Cpa.g.sc29.94' => 'cpa', 'Cpa.g.sc2974.1' => 'cpa', 'Cpa.g.sc2974.2' => 'cpa', 'Cpa.g.sc3.282' => 'cpa', 'Cpa.g.sc76.32' => 'cpa', 'Cre07.g331900' => 'cre', 'CsaV3_1G001450' => 'csa', 'CsaV3_1G008590' => 'csa', 'CsaV3_3G003150' => 'csa', 'CsaV3_5G003770' => 'csa', 'CsaV3_6G006230' => 'csa', 'CSS0000249' => 'camsi', 'CSS0012121' => 'camsi', 'CSS0014686' => 'camsi', 'CSS0017974' => 'camsi', 'CSS0027381' => 'camsi', 'CSS0035508' => 'camsi', 'DCAR_008557' => 'dca', 'DCAR_016480' => 'dca', 'DCAR_026150' => 'dca', 'DCAR_031522' => 'dca', 'Dinv07249' => 'din', 'Dinv09738' => 'din', 'Dinv17159' => 'din', 'Dinv20636' => 'din', 'Dinv20638' => 'din', 'Dinv21572' => 'din', 'Dinv22972' => 'din', 'Dinv28542' => 'din', 'Dinv37765' => 'din', 'Dinv38572' => 'din', 'Dinv38573' => 'din', 'Dinv43699' => 'din', 'Duzib068G1349' => 'dzi', 'Duzib068G1378' => 'dzi', 'Duzib084G0003' => 'dzi', 'Duzib133G1324' => 'dzi', 'Duzib138G0902' => 'dzi', 'Duzib138G1024' => 'dzi', 'Duzib205G0455' => 'dzi', 'Duzib205G1607' => 'dzi', 'Duzib205G1873' => 'dzi', 'ECA234G0174' => 'eca', 'ECA236G4453' => 'eca', 'ECA246G0682' => 'eca', 'ECA246G4214' => 'eca', 'ECA246G4361' => 'eca', 'EL10Ac2g03568' => 'bvu', 'EL10Ac5g10730' => 'bvu', 'EL10Ac5g12019' => 'bvu', 'EL10Ac7g16850' => 'bvu', 'EL10Ac9g21439' => 'bvu', 'Eucgr.B00297' => 'egr', 'Eucgr.D02461' => 'egr', 'Eucgr.D02462' => 'egr', 'Eucgr.G00068' => 'egr', 'Eucgr.G02515' => 'egr', 'FAN01G0249' => 'fan', 'FAN01G1679' => 'fan', 'FAN02G0031' => 'fan', 'FAN02G2976' => 'fan', 'FAN03G2043' => 'fan', 'FAN03G2948' => 'fan', 'FAN04G0130' => 'fan', 'FAN04G1664' => 'fan', 'FAN04G3074' => 'fan', 'FAN06G1129' => 'fan', 'FAN06G1507' => 'fan', 'FAN06G2278' => 'fan', 'FAN06G4269' => 'fan', 'FAN07G0516' => 'fan', 'FAN08G1289' => 'fan', 'FAN08G1692' => 'fan', 'FAN10G1148' => 'fan', 'FAN10G2521' => 'fan', 'FAN10G3189' => 'fan', 'FAN13G2825' => 'fan', 'FAN13G3248' => 'fan', 'FAN15G2989' => 'fan', 'FAN18G1332' => 'fan', 'FAN18G2418' => 'fan', 'FAN18G2587' => 'fan', 'FAN18G3465' => 'fan', 'FvH4_5g05470' => 'fve', 'FvH4_5g05480' => 'fve', 'FvH4_7g11600' => 'fve', 'FvH4_7g28060' => 'fve', 'Glyma.04G184600' => 'gma', 'Glyma.05G038900' => 'gma', 'Glyma.05G052300' => 'gma', 'Glyma.05G052400' => 'gma', 'Glyma.05G052600' => 'gma', 'Glyma.06G181100' => 'gma', 'Glyma.12G177950' => 'gma', 'Glyma.17G088100' => 'gma', 'Glyma.17G134800' => 'gma', 'Gohir.A07G146100' => 'ghi', 'Gohir.A08G031000' => 'ghi', 'Gohir.A08G135100' => 'ghi', 'Gohir.A09G171300' => 'ghi', 'Gohir.A09G178300' => 'ghi', 'Gohir.A11G080300' => 'ghi', 'Gohir.A12G264400' => 'ghi', 'Gohir.A12G275000' => 'ghi', 'Gohir.D07G152200' => 'ghi', 'Gohir.D08G042100' => 'ghi', 'Gohir.D08G156100' => 'ghi', 'Gohir.D09G167000' => 'ghi', 'Gohir.D09G173900' => 'ghi', 'Gohir.D12G264600' => 'ghi', 'Gohir.D12G275700' => 'ghi', 'Gorai.001G174200' => 'gra', 'Gorai.004G040700' => 'gra', 'Gorai.004G162400' => 'gra', 'Gorai.006G188800' => 'gra', 'Gorai.006G195900' => 'gra', 'Gorai.007G090600' => 'gra', 'Gorai.008G284100' => 'gra', 'Gorai.008G296200' => 'gra', 'GSVIVG01007722001' => 'vvi', 'GSVIVG01007724001' => 'vvi', 'GSVIVG01018537001' => 'vvi', 'GSVIVG01027637001' => 'vvi', 'HanXRQChr04g0122771' => 'han', 'HanXRQChr05g0155771' => 'han', 'HanXRQChr05g0155781' => 'han', 'HanXRQChr06g0176881' => 'han', 'HanXRQChr09g0245691' => 'han', 'HanXRQChr16g0520021' => 'han', 'Haze_07516' => 'cav', 'Haze_07527' => 'cav', 'Haze_13834' => 'cav', 'Haze_16799' => 'cav', 'Haze_26426' => 'cav', 'Hma1.2p1_0142F.1_g064230' => 'hma', 'Hma1.2p1_0301F.1_g118640' => 'hma', 'Hma1.2p1_0654F.1_g196450' => 'hma', 'Hma1.2p1_2165F.1_g315780' => 'hma', 'Hma1.2p1_2469F.1_g322680' => 'hma', 'HPP92_008873' => 'vpl', 'HPP92_009707' => 'vpl', 'HPP92_011872' => 'vpl', 'HPP92_012968' => 'vpl', 'Hund02754' => 'sun', 'Hund03334' => 'sun', 'Hund09449' => 'sun', 'Hund11799' => 'sun', 'Lalb_Chr05g0225421' => 'lal', 'Lalb_Chr09g0324491' => 'lal', 'Lalb_Chr12g0201661' => 'lal', 'Lalb_Chr16g0389641' => 'lal', 'Lalb_Chr23g0273281' => 'lal', 'Lalb_Chr23g0273291' => 'lal', 'Lj1g0015886' => 'lja', 'Lj3g0020576' => 'lja', 'Lj4g0015153' => 'lja', 'Lj4g0019609' => 'lja', 'Lj5C125T23' => 'lonja', 'Lj7A530G87' => 'lonja', 'Lj7A530T82' => 'lonja', 'Lj8C38T5' => 'lonja', 'Lj9A446G57' => 'lonja', 'Lj9P568T58' => 'lonja', 'Lsat_1_v5_gn_2_76820' => 'lsa', 'Lsat_1_v5_gn_4_43380' => 'lsa', 'Lsat_1_v5_gn_5_15041' => 'lsa', 'Lsat_1_v5_gn_5_15061' => 'lsa', 'Lsat_1_v5_gn_5_174200' => 'lsa', 'Lsat_1_v5_gn_7_9821' => 'lsa', 'Manes.05G046600' => 'mes', 'Manes.05G195400' => 'mes', 'Manes.06G137100' => 'mes', 'Manes.14G033601' => 'mes', 'Manes.14G064200' => 'mes', 'Manes.14G064400' => 'mes', 'Mapoly0023s0026' => 'mpo', 'Mapoly0037s0102' => 'mpo', 'Mapoly0044s0132' => 'mpo', 'Mapoly0191s0008' => 'mpo', 'MBI04_g30223_MAGBIO' => 'mbi', 'MBI12_g31645_MAGBIO' => 'mbi', 'MBI16_g39217_MAGBIO' => 'mbi', 'MCO04G383' => 'mco', 'MCO13G537' => 'mco', 'MD00G1099800' => 'mdo', 'MD01G1099100' => 'mdo', 'MD06G1172200' => 'mdo', 'MD06G1172500' => 'mdo', 'MD07G1120500' => 'mdo', 'MD07G1257100' => 'mdo', 'MD14G1178100' => 'mdo', 'MD14G1178400' => 'mdo', 'Medtr3g077620' => 'mtr', 'Medtr4g024265' => 'mtr', 'Medtr4g024550' => 'mtr', 'Medtr4g102170' => 'mtr', 'Medtr4g105570' => 'mtr', 'Medtr4g105580' => 'mtr', 'Medtr5g011910' => 'mtr', 'MELO3C000351.2' => 'cme', 'MELO3C001168.2' => 'cme', 'MELO3C002273.2' => 'cme', 'MELO3C005580.2' => 'cme', 'MELO3C010618.2' => 'cme', 'MELO3C010867.2' => 'cme', 'MELO3C013981.2' => 'cme', 'MELO3C017091.2' => 'cme', 'MELO3C022497.2' => 'cme', 'MELO3C027667.2' => 'cme', 'MELO3C027693.2' => 'cme', 'MELO3C027771.2' => 'cme', 'MELO3C027814.2' => 'cme', 'MELO3C027888.2' => 'cme', 'MELO3C027897.2' => 'cme', 'MELO3C027904.2' => 'cme', 'MELO3C027938.2' => 'cme', 'MELO3C027959.2' => 'cme', 'MELO3C028131.2' => 'cme', 'MELO3C028137.2' => 'cme', 'MELO3C028247.2' => 'cme', 'MELO3C030588.2' => 'cme', 'MELO3C031097.2' => 'cme', 'MELO3C031193.2' => 'cme', 'MELO3C033038.2' => 'cme', 'MELO3C034289.2' => 'cme', 'Migut.B01624' => 'egut', 'Migut.F00441' => 'egut', 'Migut.O00098' => 'egut', 'Migut.O00114' => 'egut', 'Migut.O00303' => 'egut', 'Migut.O00304' => 'egut', 'MSTRG.11466' => 'ama', 'MSTRG.17179' => 'ama', 'MSTRG.17182' => 'ama', 'MSTRG.20744' => 'ama', 'MSTRG.23139' => 'ama', 'MSTRG.27180' => 'ama', 'MSTRG.8808' => 'ama', 'Nitab4.5_0000025g0520' => 'nta', 'Nitab4.5_0000072g0470' => 'nta', 'Nitab4.5_0000205g0100' => 'nta', 'Nitab4.5_0000205g0110' => 'nta', 'Nitab4.5_0000457g0190' => 'nta', 'Nitab4.5_0000481g0060' => 'nta', 'Nitab4.5_0000514g0030' => 'nta', 'Nitab4.5_0001153g0140' => 'nta', 'Nitab4.5_0001329g0150' => 'nta', 'Nitab4.5_0001514g0050' => 'nta', 'Nitab4.5_0003530g0010' => 'nta', 'Nitab4.5_0003912g0090' => 'nta', 'Nitab4.5_0005272g0020' => 'nta', 'Nitab4.5_0008678g0030' => 'nta', 'Nn1g01146' => 'nnu', 'Nn3g16820' => 'nnu', 'Nn3g19556' => 'nnu', 'Nn4g22714' => 'nnu', 'Nn4g26372' => 'nnu', 'Nn5g30131' => 'nnu', 'Nn6g35500' => 'nnu', 'Nn7g37127' => 'nnu', 'Oeu005790.1' => 'oeu', 'Oeu016401.1' => 'oeu', 'Oeu023228.1' => 'oeu', 'Oeu023435.1' => 'oeu', 'Oeu028177.1' => 'oeu', 'Oeu037920.1' => 'oeu', 'Os01g0271000' => 'osa', 'Os01g0549500' => 'osa', 'Os02g0677800' => 'osa', 'Os07g0572900' => 'osa', 'Os08g0117200' => 'osa', 'Os08g0117300' => 'osa', 'Peaxi162Scf00013g03227' => 'pax', 'Peaxi162Scf00089g01839' => 'pax', 'Peaxi162Scf00089g01840' => 'pax', 'Peaxi162Scf00089g01850' => 'pax', 'Peaxi162Scf00238g00097' => 'pax', 'Peaxi162Scf00255g01019' => 'pax', 'Peaxi162Scf00304g01332' => 'pax', 'Peaxi162Scf00397g00009' => 'pax', 'Peaxi162Scf00959g00219' => 'pax', 'Peaxi162Scf00959g00220' => 'pax', 'Peaxi162Scf01372g00049' => 'pax', 'PGR004G1901' => 'pgr', 'PGR031G3303' => 'pgr', 'PGR044G0925' => 'pgr', 'PGR044G1577' => 'pgr', 'PGR083G1532' => 'pgr', 'PGR142G0317' => 'pgr', 'PGSC0003DMG400006991' => 'stu', 'PGSC0003DMG400009588' => 'stu', 'PGSC0003DMG400018154' => 'stu', 'PGSC0003DMG400023013' => 'stu', 'PGSC0003DMG400027383' => 'stu', 'PGSC0003DMG401025960' => 'stu', 'Phvul.003G201800' => 'pvu', 'Phvul.003G214600' => 'pvu', 'Phvul.009G177300' => 'pvu', 'Phvul.010G082900' => 'pvu', 'Potri.002G146800' => 'ptr', 'Potri.012G082500' => 'ptr', 'Potri.012G128600' => 'ptr', 'Potri.014G068600' => 'ptr', 'Potri.015G078300' => 'ptr', 'Potri.015G078600' => 'ptr', 'Potri.015G130000' => 'ptr', 'Pp3c11_1100' => 'ppa', 'Pp3c16_15220' => 'ppa', 'Pp3c17_17380' => 'ppa', 'Pp3c1_6160' => 'ppa', 'Pp3c26_1280' => 'ppa', 'Pp3c7_26720' => 'ppa', 'PRCOL_00005655' => 'pco', 'PRCOL_00005721' => 'pco', 'Prupe.2G000700' => 'ppe', 'Prupe.2G144200' => 'ppe', 'Prupe.2G281300' => 'ppe', 'Prupe.4G286400' => 'ppe', 'Prupe.5G171600' => 'ppe', 'Prupe.5G171800' => 'ppe', 'Psat0ss3962g0400' => 'psa', 'Psat2g179320' => 'psa', 'Psat4g058400' => 'psa', 'Psat4g068080' => 'psa', 'Psat5g097560' => 'psa', 'Psat5g097640' => 'psa', 'Psat7g231200' => 'psa', 'PSO017G3912' => 'pso', 'PSO017G6576' => 'pso', 'PSO063G5231' => 'pso', 'PSO478G1387' => 'pso', 'PSO478G2999' => 'pso', 'PSO782G5390' => 'pso', 'PSO832G1073' => 'pso', 'QL08p052659' => 'qlo', 'QL09p018877' => 'qlo', 'QL10p010977' => 'qlo', 'QL10p011002' => 'qlo', 'RcHm_v2.0_Chr1g0350031' => 'rch', 'RcHm_v2.0_Chr1g0374971' => 'rch', 'RcHm_v2.0_Chr6g0282091' => 'rch', 'RcHm_v2.0_Chr7g0193351' => 'rch', 'RcHm_v2.0_Chr7g0193371' => 'rch', 'Rhsim01G0148700' => 'rsi', 'Rhsim03G0170800' => 'rsi', 'Rhsim07G0028300' => 'rsi', 'Rhsim08G0173800' => 'rsi', 'Sabra02G0114400' => 'sbr', 'Sabra02G0116000' => 'sbr', 'Sabra12G0059200' => 'sbr', 'Sabra12G0096600' => 'sbr', 'Sabra14G0048300' => 'sbr', 'Sabra15G0102900' => 'sbr', 'Sabra15G0103100' => 'sbr', 'Sabra15G0143500' => 'sbr', 'SalBow1G6106' => 'sbo', 'SalBow4G1211' => 'sbo', 'SalBow4G2549' => 'sbo', 'SalBow4G3349' => 'sbo', 'SalBow5G0128' => 'sbo', 'SalBow5G1326' => 'sbo', 'SalBow5G1735' => 'sbo', 'SalBow5G3118' => 'sbo', 'SalBow5G5253' => 'sbo', 'Sc04g0001730' => 'sci', 'Sc04g0001750' => 'sci', 'Sc23g0003600' => 'sci', 'Sc26g0001220' => 'sci', 'Sc26g0001230' => 'sci', 'Sed0004840' => 'sed', 'Sed0005243' => 'sed', 'Sed0015520' => 'sed', 'Sed0021678' => 'sed', 'Sed0023611' => 'sed', 'Sed0024252' => 'sed', 'Sed0024697' => 'sed', 'SEGI_11633' => 'sgi', 'SEGI_19196' => 'sgi', 'SEGI_24933' => 'sgi', 'SEGI_38263' => 'sgi', 'SEGI_40590' => 'sgi', 'SGA_v2.0_scaffold116G32233' => 'sas', 'SGA_v2.0_scaffold153G37001' => 'sas', 'SGA_v2.0_scaffold25G11050' => 'sas', 'SGA_v2.0_scaffold2G01163' => 'sas', 'SGA_v2.0_scaffold486G52385' => 'sas', 'SGA_v2.0_scaffold90G27896' => 'sas', 'SGA_v2.0_scaffold90G27900' => 'sas', 'SGA_v2.0_scaffold95G28904' => 'sas', 'SHI17077' => 'shi', 'SHI25333' => 'shi', 'SHI38067' => 'shi', 'SMO111G0048' => 'smo', 'SMO117G0094' => 'smo', 'SMO367G0209' => 'smo', 'Solyc01g091220.3' => 'sly', 'Solyc03g083530.3' => 'sly', 'Solyc03g112810.3' => 'sly', 'Solyc03g112830.4' => 'sly', 'Solyc05g051000.3' => 'sly', 'Solyc10g018250.2' => 'sly', 'Solyc11g072260.2' => 'sly', 'Solyc12g077580.1' => 'sly', 'Sopen01g036970' => 'spe', 'Sopen03g023340' => 'spe', 'Sopen03g031890' => 'spe', 'Sopen03g031910' => 'spe', 'Sopen05g029470' => 'spe', 'Sopen10g007480' => 'spe', 'Sopen11g029930' => 'spe', 'Sp2g26130' => 'spa', 'Sp4g27370' => 'spa', 'Sp5g02480' => 'spa', 'Sp5g13830' => 'spa', 'Sp6g00160' => 'spa', 'TAR369G0322' => 'tar', 'TAR371G0469' => 'tar', 'TAR371G0726' => 'tar', 'TAR374G1550' => 'tar', 'TAR375G0644' => 'tar', 'TAR622G0946' => 'tar', 'TAR629G0323' => 'tar', 'TAR636G1517' => 'tar', 'TAR636G2267' => 'tar', 'THA.LOC104798972' => 'tha', 'THA.LOC104801477' => 'tha', 'THA.LOC104802451' => 'tha', 'THA.LOC104814082' => 'tha', 'THA.LOC104817243' => 'tha', 'THA.LOC104818216' => 'tha', 'THA.LOC104827615' => 'tha', 'Thecc.01G378000' => 'tca', 'Thecc.03G014400' => 'tca', 'Thecc.03G014600' => 'tca', 'Thecc.03G160500' => 'tca', 'Thecc.03G261500' => 'tca', 'Thhalv10001670m.g' => 'esa', 'Thhalv10004944m.g' => 'esa', 'Thhalv10006293m.g' => 'esa', 'Thhalv10010097m.g' => 'esa', 'Thhalv10029042m.g' => 'esa', 'TPR.G11031' => 'tpr', 'TPR.G19711' => 'tpr', 'TPR.G20687' => 'tpr', 'TPR.G2509' => 'tpr', 'TPR.G31330' => 'tpr', 'TPR.G37467' => 'tpr', 'TPR.G37641' => 'tpr', 'TWI14G0621' => 'twi', 'TWI14G1393' => 'twi', 'TWI15G0412' => 'twi', 'TWI23G1000' => 'twi', 'TWI39G0231' => 'twi', 'TWI39G1130' => 'twi', 'TWI59G0127' => 'twi', 'TWI60G1146' => 'twi', 'unitig_0.g1435' => 'ugi', 'unitig_22.g5381' => 'ugi', 'unitig_26.g9619' => 'ugi', 'unitig_76.g29086' => 'ugi', 'unitig_8.g3824' => 'ugi', 'vmacro06773' => 'vma', 'vmacro13409' => 'vma', 'vmacro19399' => 'vma', 'vmacro19400' => 'vma', 'vmacro19401' => 'vma', 'vmacro21017' => 'vma', 'VMungo0331G1036' => 'vmu', 'VMungo1127G1190' => 'vmu', 'VMungo1215G1163' => 'vmu', 'VMungo1215G3341' => 'vmu', 'VMungo1309G1607' => 'vmu', 'Zm00001eb162380' => 'zma', 'Zm00001eb173710' => 'zma', 'Zm00001eb173730' => 'zma', 'Zm00001eb260960' => 'zma', 'Zm00001eb332970' => 'zma' ) $gf_id = 'HOM05D000922' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000922' ) $data_identifier = 'HOM05D000922' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 16, 'aar' => (int) 3, 'aag' => (int) 3, 'ach' => (int) 9, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 4, 'arhy' => (int) 17, 'ath' => (int) 4, 'atr' => (int) 4, 'acertr' => (int) 8, 'cqu' => (int) 8, 'bca' => (int) 12, 'bol' => (int) 7, 'bra' => (int) 8, 'can' => (int) 4, 'cansat' => (int) 5, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 6, 'cbr' => (int) 2, 'ccan' => (int) 7, 'cde' => (int) 6, 'cfa' => (int) 6, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 6, 'dca' => (int) 4, 'din' => (int) 12, 'dzi' => (int) 9, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 26, 'fve' => (int) 4, 'gma' => (int) 9, 'ghi' => (int) 15, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 6, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 6, 'lsa' => (int) 6, 'mes' => (int) 6, 'mpo' => (int) 4, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 8, 'mtr' => (int) 7, 'cme' => (int) 26, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 14, 'nnu' => (int) 8, 'oeu' => (int) 6, 'osa' => (int) 6, 'pax' => (int) 11, 'pgr' => (int) 6, 'stu' => (int) 6, 'pvu' => (int) 4, 'ptr' => (int) 7, 'ppa' => (int) 6, 'pco' => (int) 2, 'ppe' => (int) 6, 'psa' => (int) 7, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 5, 'rsi' => (int) 4, 'sbr' => (int) 8, 'sbo' => (int) 9, 'sci' => (int) 5, 'sed' => (int) 7, 'sgi' => (int) 5, 'sas' => (int) 8, 'shi' => (int) 3, 'smo' => (int) 3, 'sly' => (int) 8, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 9, 'tha' => (int) 7, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 7, 'twi' => (int) 8, 'ugi' => (int) 5, 'vma' => (int) 6, 'vmu' => (int) 5, 'zma' => (int) 5 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb332970' $species_info = array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) $local_species = 'zma' $disabled = '' $selected = '' $num_hits = (int) 1